From 7963b6bf873e35cd30dfc16d607a6ec771be5b66 Mon Sep 17 00:00:00 2001 From: Robrecht Cannoodt Date: Thu, 18 Aug 2022 19:38:13 +0200 Subject: [PATCH] update readme --- README.Rmd | 2 +- README.md | 2 +- cran-comments.md | 30 +++++++++--------- revdep/README.md | 81 +++++++++++++++++++++++++----------------------- 4 files changed, 58 insertions(+), 57 deletions(-) diff --git a/README.Rmd b/README.Rmd index 8b6ebd9..0fa363a 100644 --- a/README.Rmd +++ b/README.Rmd @@ -10,7 +10,7 @@ output: [![R-CMD-check](https://github.com/dynverse/babelwhale/workflows/R-CMD-check/badge.svg)](https://github.com/dynverse/babelwhale/actions) [![CRAN_Status_Badge](https://www.r-pkg.org/badges/version/babelwhale)](https://cran.r-project.org/package=babelwhale) -[![Codecov test coverage](https://codecov.io/gh/dynverse/babelwhale/branch/master/graph/badge.svg)](https://codecov.io/gh/dynverse/babelwhale?branch=master) +[![Codecov test coverage](https://app.codecov.io/gh/dynverse/babelwhale/branch/master/graph/badge.svg)](https://app.codecov.io/gh/dynverse/babelwhale?branch=master) Specify docker or singularity diff --git a/README.md b/README.md index 0349f40..829bfa1 100644 --- a/README.md +++ b/README.md @@ -6,7 +6,7 @@ [![R-CMD-check](https://github.com/dynverse/babelwhale/workflows/R-CMD-check/badge.svg)](https://github.com/dynverse/babelwhale/actions) [![CRAN_Status_Badge](https://www.r-pkg.org/badges/version/babelwhale)](https://cran.r-project.org/package=babelwhale) [![Codecov test -coverage](https://codecov.io/gh/dynverse/babelwhale/branch/master/graph/badge.svg)](https://codecov.io/gh/dynverse/babelwhale?branch=master) +coverage](https://app.codecov.io/gh/dynverse/babelwhale/branch/master/graph/badge.svg)](https://app.codecov.io/gh/dynverse/babelwhale?branch=master) Specify docker or singularity diff --git a/cran-comments.md b/cran-comments.md index 80a67f3..5da5107 100644 --- a/cran-comments.md +++ b/cran-comments.md @@ -1,33 +1,31 @@ -# babelwhale 1.0.2 +# babelwhale 1.1.0 -* BUG FIX `test_docker_installation()`: Use `docker info` to check whether docker is available. +* NEW FUNCTIONALITY `run_auto_mount()`: Added helper function for letting `babelwhale` figure out which directories to mount automatically (#26, thanks @joelnitta!). -* BUG FIX: Redirect stdout and stderr to files to avoid processx hangs (#24, thanks @joelnitta!). - -* MINOR CHANGE: Change maintainer from Wouter to Robrecht. ## Test environments -* local Fedora 30 installation, R 4.0 -* ubuntu (on github actions), R 4.0 +* local installation, R release +* ubuntu (on github actions), R release +* ubuntu (on github actions), R devel * win-builder (via devtools), R release * win-builder (via devtools), R devel ## R CMD check results ``` > revdepcheck::revdep_check(timeout = as.difftime(600, units = "mins"), num_workers = 30) -── INIT ────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── Computing revdeps ── -── INSTALL ────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── 2 versions ── +── INIT ────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── Computing revdeps ── +── INSTALL ────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── 2 versions ── Installing CRAN version of babelwhale -also installing the dependencies ‘fansi’, ‘pkgconfig’, ‘cli’, ‘utf8’, ‘rprojroot’, ‘RcppParallel’, ‘RcppArmadillo’, ‘stringi’, ‘ellipsis’, ‘generics’, ‘glue’, ‘lifecycle’, ‘magrittr’, ‘R6’, ‘rlang’, ‘tibble’, ‘tidyselect’, ‘vctrs’, ‘pillar’, ‘assertthat’, ‘desc’, ‘proxyC’, ‘Rcpp’, ‘remotes’, ‘stringr’, ‘ps’, ‘crayon’, ‘dplyr’, ‘dynutils’, ‘processx’, ‘purrr’ +also installing the dependencies ‘glue’, ‘fansi’, ‘pkgconfig’, ‘ellipsis’, ‘cli’, ‘utf8’, ‘rprojroot’, ‘RcppParallel’, ‘RcppArmadillo’, ‘generics’, ‘lifecycle’, ‘R6’, ‘rlang’, ‘tibble’, ‘tidyselect’, ‘vctrs’, ‘pillar’, ‘assertthat’, ‘desc’, ‘proxyC’, ‘Rcpp’, ‘remotes’, ‘ps’, ‘crayon’, ‘dplyr’, ‘dynutils’, ‘processx’, ‘purrr’ Installing DEV version of babelwhale -Installing 31 packages: stringi, magrittr, glue, rlang, RcppArmadillo, RcppParallel, Rcpp, purrr, pkgconfig, utf8, fansi, crayon, cli, pillar, vctrs, tidyselect, tibble, R6, lifecycle, generics, ellipsis, rprojroot, ps, stringr, remotes, proxyC, dplyr, desc, assertthat, processx, dynutils -── CHECK ──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── 1 packages ── -✓ dynwrap 1.2.2 ── E: 1 | W: 0 | N: 0 -OK: 1 +Installing 32 packages: stringi, magrittr, glue, rlang, RcppArmadillo, RcppParallel, Rcpp, purrr, ellipsis, pkgconfig, utf8, fansi, cli, pillar, vctrs, tidyselect, tibble, R6, lifecycle, generics, rprojroot, ps, remotes, proxyC, dplyr, desc, crayon, assertthat, digest, processx, dynutils, fs +── CHECK ──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── 1 packages ── +✔ dynwrap 1.2.2 ── E: 1 | W: 0 | N: 0 +OK: 1 BROKEN: 0 -Total time: 12 min -── REPORT ───────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── +Total time: 11 min +── REPORT ───────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────── Writing summary to 'revdep/README.md' Writing problems to 'revdep/problems.md' Writing failures to 'revdep/failures.md' diff --git a/revdep/README.md b/revdep/README.md index 1244546..880321b 100644 --- a/revdep/README.md +++ b/revdep/README.md @@ -1,53 +1,56 @@ # Platform -|field |value | -|:--------|:-------------------------------| -|version |R version 4.0.5 (2021-03-31) | -|os |Fedora 33 (Workstation Edition) | -|system |x86_64, linux-gnu | -|ui |RStudio | -|language |(EN) | -|collate |en_GB.UTF-8 | -|ctype |en_GB.UTF-8 | -|tz |Europe/Brussels | -|date |2021-06-24 | +|field |value | +|:--------|:-----------------------------------------------------------| +|version |R version 4.1.3 (2022-03-10) | +|os |Fedora Linux 35 (Workstation Edition) | +|system |x86_64, linux-gnu | +|ui |RStudio | +|language |(EN) | +|collate |en_GB.UTF-8 | +|ctype |en_GB.UTF-8 | +|tz |Europe/Brussels | +|date |2022-08-18 | +|rstudio |2022.02.3+492 Prairie Trillium (desktop) | +|pandoc |2.14.0.3 @ /usr/libexec/rstudio/bin/pandoc/ (via rmarkdown) | # Dependencies |package |old |new |Δ | |:-------------|:----------|:----------|:--| -|babelwhale |1.0.2 |1.0.3 |* | +|babelwhale |1.0.3 |1.1.0 |* | |assertthat |0.2.1 |0.2.1 | | -|cli |2.5.0 |2.5.0 | | -|crayon |1.4.1 |1.4.1 | | -|desc |1.3.0 |1.3.0 | | -|dplyr |1.0.7 |1.0.7 | | -|dynutils |1.0.6 |1.0.6 | | +|cli |3.3.0 |3.3.0 | | +|crayon |1.5.1 |1.5.1 | | +|desc |1.4.1 |1.4.1 | | +|digest |NA |0.6.29 |* | +|dplyr |1.0.9 |1.0.9 | | +|dynutils |1.0.9 |1.0.9 | | |ellipsis |0.3.2 |0.3.2 | | -|fansi |0.5.0 |0.5.0 | | -|generics |0.1.0 |0.1.0 | | -|glue |1.4.2 |1.4.2 | | -|lifecycle |1.0.0 |1.0.0 | | -|magrittr |2.0.1 |2.0.1 | | -|pillar |1.6.1 |1.6.1 | | +|fansi |1.0.3 |1.0.3 | | +|fs |NA |1.5.2 |* | +|generics |0.1.3 |0.1.3 | | +|glue |1.6.2 |1.6.2 | | +|lifecycle |1.0.1 |1.0.1 | | +|magrittr |NA |2.0.3 |* | +|pillar |1.8.0 |1.8.0 | | |pkgconfig |2.0.3 |2.0.3 | | -|processx |3.5.2 |3.5.2 | | -|proxyC |0.2.0 |0.2.0 | | -|ps |1.6.0 |1.6.0 | | +|processx |3.7.0 |3.7.0 | | +|proxyC |0.3.0 |0.3.0 | | +|ps |1.7.1 |1.7.1 | | |purrr |0.3.4 |0.3.4 | | -|R6 |2.5.0 |2.5.0 | | -|Rcpp |1.0.6 |1.0.6 | | -|RcppArmadillo |0.10.5.0.0 |0.10.5.0.0 | | -|RcppParallel |5.1.4 |5.1.4 | | -|remotes |2.4.0 |2.4.0 | | -|rlang |0.4.11 |0.4.11 | | -|rprojroot |2.0.2 |2.0.2 | | -|stringi |1.6.2 |1.6.2 | | -|stringr |1.4.0 |1.4.0 | | -|tibble |3.1.2 |3.1.2 | | -|tidyselect |1.1.1 |1.1.1 | | -|utf8 |1.2.1 |1.2.1 | | -|vctrs |0.3.8 |0.3.8 | | +|R6 |2.5.1 |2.5.1 | | +|Rcpp |1.0.9 |1.0.9 | | +|RcppArmadillo |0.11.2.0.0 |0.11.2.0.0 | | +|RcppParallel |5.1.5 |5.1.5 | | +|remotes |2.4.2 |2.4.2 | | +|rlang |1.0.4 |1.0.4 | | +|rprojroot |2.0.3 |2.0.3 | | +|stringi |NA |1.7.8 |* | +|tibble |3.1.8 |3.1.8 | | +|tidyselect |1.1.2 |1.1.2 | | +|utf8 |1.2.2 |1.2.2 | | +|vctrs |0.4.1 |0.4.1 | | # Revdeps